top of page
mmu_ciAtl2_2227
Basic information of circular RNA
PanCircBase ID:
mmu_ciAtl2_2227
mm39_Chr. Position ID:
chr17|80157726|80159953|-
Gene name:
Atl2
Transcript:
ENSMUST00000068282.7
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
12
Exon/intron offsets:
0
Genomic length:
2227
Exon/intron sizes in nt:
2227
Flanking exon/introns:
chr17:80157707-80159953
Splice length:
2227
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTTGGTATCTATTTTTTGATTTTGCGGTGACTAATCTGACTTCTGTGTGATTTCTAGTTTCCACTTTCTGTCTTATTTGTACACCTACTTTTTTCTTTTTCACATGAGGATGGGGTTTGGTGGTTTTTGTTTTTTTGTGGTGGTGGTGATGTTTTGTTTTTGTTTTTAATGTAAGAATCTAACTTAGTTAAGGGTTTCCCTTTGTTCATAATTATAGTTTTCTTTGATTAGCTTGAATCTGTAATATCTTTGGTTAGTTCTTACTTAAAAGCCTGGTGATTATGCCAGACGGTGAGCAGGGCTAGATTTACTAAGAATACTGTGAACGAGCAATTTTAAAGGTAAGAAAAAAAGTTTTCTAACCAATATTAACAAGAAACAACGTAGGAGGAATATGTTAGGTTTTCATGTCTTCTGGGAGGAGGCTGGCAATTTATTGCAGTACTCTAAGGAGTAATCCCATAGAGATTTCTTCCAAAGAAAAAAAGTTTAACATCTGTTATGTGGAAACGCAGAGAATAGGGCAGAGCAGCACAGGCCGAGGAAGCAGCATCGACTATAATCTCATGTTAAGCCAGAGTCCTAGGCCAGGCTGAGACCTGGCTCAGCTGTTATCTATTACGGAAAGCTGTTTCTTATATTTCTTCCTGGATTGTTTGAATATAGACATTTCTCTTGTGGTGGTGGTTAAAATGATCCTCATTAAGTGCCCAGACCTCATCTCATCATATGCAGGAACAGAATGGAAGCTGTAATTATTACAGATGAGCAGATGAGAGGCTTGGTCCATGTCTCCTCTAGGTCAGCGAGGTGAGGCGTTATTAGAGATACAGATACACAGGTGCCTGCTTGTTTGGGTTTTCAATTCAAAGACTGAGGAGTCAACGATCTTTTTTTTTTTCTGAAGAAAACTGATTAGGTATTATAATAACAACATTATGACTGTGTAAACCAGTGGTTCTCACCTCCTAATACTTTGGCCCAATACAATTTCTCATGTTGTGGTGACCCTCCAACCATAAAATTATTTTTGTTGCCCCTTCATAACTGTAATTTTGCTGCTGTTAAGAATCATAATGTAAATATTTGGGCTGGGTAGGGGGTTGCCAAAGGGGTTGTGAGCCACTGGTGGAGAGCCGCTGATAGAGACTAAGCTAGTGTACTAACTTGGACACTCTCTTTTAAACGCACTCTTGTGCTTCAGATCTCCTTGGGAGTTTGTGTCTGGACATTTTGTCAAGGTCAAATTTTTGTCTCTCAAAATCAGTCTCACTGTTTTGCTGTCTTTTGCTGCTTTCTAATAGAATAGATTAAGAATCATTTTCACATCACTGCTTTAAAAATAATCTACTTTACATTTTTTATCAAAACTATTCTCCTACCTTGATATTAATTATTACAGTGTCTTTTGAAATGCTTTCTGTTAGTATTGATTCTAGGACTTTAGAGGTGCCATTATTAGAGAAGAGTTTCACAGGAGAATCTCAGCTGTCTAAAGTTATTTTCAGTGTAGTATAGTGAGGTAAGAGCCACAAGTCACCATCCCTTGTCAGAGAAGACTTGTGCTATGTTCAGCTAGTCTTGTCTAAAATTTCTTTGCATTTCTCTTTTCTTTTGCTTCAGAGGAGTCCCAGGAAGGTGAGAAACTACAAAGTCTGAAATTGTTCTAGTCTTTAACTGTAGCTTTGAGGCATCTGAGTCTCTCTCCTAACACATCACTCCGTGTTTTAGGTGTTTGCCAAACTGTTTGAAGTCAGTAGACGTCGAAGGGTCCACCGTGCTCTCTCGTCAGCACAGCGACAGAGACTGTCATCCAACAATAACAAGAAGAGAAATTAGACAGGATTTTTAACTTTTTTCTCTATCTGAAGTGTTCACACTTACACATGTAGGACAATAAGCAGGACCGTCTGGGCCGGTCTGCATAATGCTGTATACATACCAGATTTGATGCTGCACATAGGGTATGGATTGCACATCCGTCTCATAGGATTTGTAAATGGTTTGAGTAAGAGGAAAGTAACTTTCGTTGCATTATAAAATGTCTTAACTGCATTGTTTGTAGCATCATAACTTTTTCTTTCTTTTTCTTTTTTCTTTGTTCTTTTGGGAGAAGCATCTTTTTATTTCTCACATTCCTGATTATTTTTGTCATTAATTTAAATTGAATTTTTTATATCTGTTTTTATATGTACTCTTTTTTTACCTCATGCTTTTGTTTGTTTTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTCACATTCCTGATTATTTTTGTCA
57.37
AGAAGTCAGATTAGTCACCGCA
59.17
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTCACATTCCTGATTATTTTTGTCA
56.11
AGAAGTCAGATTAGTCACCGCA
59.17
142
PCR template sequence:
TTCTCACATTCCTGATTATTTTTGTCATTAATTTAAATTGAATTTTTTATATCTGTTTTTATATGTACTCTTTTTTTACCTCATGCTTTTGTTTGTTTTGGTTGGTATCTATTTTTTGATTTTGCGGTGACTAATCTGACTTCTGTGTGATTTCTAGTTTCCACTTTCTGTCTTATTTGTACACCTACTTTTTTCTTTTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
26
Interacting miRNAs (#binding sites)
mmu-miR-103-3p(2), mmu-miR-29b-1-5p(2), mmu-miR-107-3p(2), mmu-miR-15a-5p(1), mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-1a-3p(1), mmu-miR-206-3p(1), mmu-miR-31-5p(1), mmu-miR-26a-5p(1), mmu-miR-211-5p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-185-5p(1), mmu-miR-495-3p(1), mmu-miR-182-5p(1), mmu-miR-192-5p(1), mmu-miR-183-5p(1), mmu-miR-215-5p(1), mmu-miR-342-3p(1), mmu-miR-377-3p(1), mmu-miR-369-3p(1), mmu-miR-539-5p(1), mmu-miR-3065-5p(1), mmu-miR-3105-3p(1), mmu-miR-193b-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTTGTTTGTTTTGGTTGGTATCTATT
siRNA sets
ATACCAACCAAAACAAACA, ATAGATACCAACCAAAACA, AATAGATACCAACCAAAAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.91191112
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page